modules/genomad_endtoend
Identify mobile genetic elements present in genomic assemblies
metagenomicsgenomaddatabasedownloadphagevirusplasmid
Output
Name (Type)
Description
Pattern
Combined classification scores for each contig/scaffold/chromosome
*_aggregated_classification.tsv Detailed output of each provirus identified by geNomad’s find_proviruses module
*_provirus.tsv OPTIONAL - Predicted sample composition when --enable-score-calibration is used
*_compositions.tsv OPTIONAL - Classification scores that have been adjusted based on sample composition when --enable-score-calibration is used`
*_calibrated_aggregated_classification.tsv TSV file containing predicted plasmid genes and their annotations
*_plasmid_genes.tsv FASTA file containing predicted plasmid protein sequences
*_plasmid_proteins.faa TSV file containing a summary of geNomad’s plasmid predictions
*_plasmid_summary.tsv TSV file containing predicted virus genes and their annotations
*_virus_genes.tsv TSV file containing a summary of geNomad’s virus predictions
*_virus_summary.tsv included in
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